Toyota · Known Issues

2006 Toyota Matrix Problems: 12 Known Issues

2006 model year · 2,780+ owner reports · Updated August 2026

According to Au7o's analysis of 2,780+ owner reports, the 2006 Toyota Matrix has 12 documented known issues, with 3 rated critical. The most serious are Engine Control Module Solder/Varistor Cracking Causing Stalling and Harsh Shifting (Recall 10V384) ($0-$1,200 repair), Takata Non-Desiccated Front Passenger Airbag Inflator Rupture ($0-$0 repair) and XRS 2ZZ-GE Oil Starvation from Unbaffled Oil Pan and VVTL-i Lift Dropout ($150-$3,500 repair). The most commonly reported issue is Rear Hatch Strut Failure with 1,800 owner reports. Across all issues with published estimates, repair costs range from $20 to $3,500. DIY maintenance guides at au7o.io.

Frequently Asked Questions

What are the most common Toyota Matrix problems?

According to Au7o's analysis of 2,780+ owner reports, the 2006 Toyota Matrix has 12 documented issues. The most frequently reported are: Engine Control Module Solder/Varistor Cracking Causing Stalling and Harsh Shifting (Recall 10V384), Takata Non-Desiccated Front Passenger Airbag Inflator Rupture, XRS 2ZZ-GE Oil Starvation from Unbaffled Oil Pan and VVTL-i Lift Dropout. Of these, 3 are rated critical and should be addressed promptly.

Is the Toyota Matrix reliable?

The 2006 Toyota Matrix has 12 known issues documented across 2,780+ owner reports. 3 issues are rated critical: Engine Control Module Solder/Varistor Cracking Causing Stalling and Harsh Shifting (Recall 10V384) and Takata Non-Desiccated Front Passenger Airbag Inflator Rupture and XRS 2ZZ-GE Oil Starvation from Unbaffled Oil Pan and VVTL-i Lift Dropout. Prospective buyers should inspect for these issues and factor potential repair costs into their purchase decision. Regular maintenance following the manufacturer's schedule helps prevent many common problems.

How much does it cost to fix common Toyota Matrix problems?

Repair costs for known Toyota Matrix issues range from $0 to $3,500, depending on the specific problem and whether you choose DIY or professional repair. The most critical issue, Engine Control Module Solder/Varistor Cracking Causing Stalling and Harsh Shifting (Recall 10V384), typically costs $0-$1,200 to repair. Au7o provides step-by-step DIY maintenance guides that can help reduce repair costs.

What is the 2005-2008 Toyota Matrix Engine Control Module Solder/Varistor Cracking Causing Stalling and Harsh Shifting (Recall 10V384)?

Toyota recalled roughly 1.13 million 2005-2008 Corolla and Corolla Matrix vehicles built with the 1ZZ-FE engine and two-wheel drive because the engine control module was improperly manufactured. Cracks can develop at solder points or on varistors on the ECM circuit board. Symptom… Repairs typically run $0-$1,200. Severity: high.

What is the 2003-2013 Toyota Matrix Takata Non-Desiccated Front Passenger Airbag Inflator Rupture?

The Matrix is caught in multiple phases of the Takata inflator campaign because it used non-desiccated ammonium nitrate inflators across both generations. The propellant degrades with long-term exposure to heat and humidity cycling; on deployment the inflator housing can rupture… Repairs typically run $0-$0. Severity: high.

What is the 2003-2006 Toyota Matrix XRS 2ZZ-GE Oil Starvation from Unbaffled Oil Pan and VVTL-i Lift Dropout?

The Matrix XRS uses the high-revving 2ZZ-GE with VVTL-i, an engine shared with the Celica GT-S and Lotus Elise. Two related weaknesses are documented by owners: the Matrix/Corolla XRS oil pan lacks the internal baffle the 1ZZ-FE pan has, so during sustained cornering or a low oil… Repairs typically run $150-$3,500. Severity: high.

What is the 2003-2008 Toyota Matrix Rocker Panel and Rear Wheel Arch Rust?

1st-gen Matrix models are prone to rust at the rocker panels, rear wheel arches, and rear hatch seam areas in salt-belt regions. The rust starts from inside the rocker panel and works outward, often being severe before it becomes visible on the exterior. Repairs typically run $100-$1,500. Severity: medium.

What is the 2003-2006 Toyota Matrix AWD Viscous Coupling Bearing Whine Misdiagnosed as Rear Differential Failure?

On the all-wheel-drive Matrix and Pontiac Vibe of the first generation, a speed-dependent hum or growl from the rear is one of the most commonly reported complaints - and one of the most commonly misdiagnosed. Toyota published a tech bulletin on abnormal noise from the rear diffe… Repairs typically run $150-$1,400. Severity: medium.

What is the 2003-2013 Toyota Matrix Water Pump Bearing Noise and Coolant Seepage on the 1.8L?

Coolant appearing under the front passenger side of the car, often as a dried pink or orange crust rather than a puddle, is one of the highest-frequency Matrix repairs across both generations. The mechanical water pump's shaft seal fails and coolant weeps from the pump's weep hol… Repairs typically run $250-$650. Severity: medium.

What is the 2003-2013 Toyota Matrix Sunroof Drain Tube Clogging Causing Headliner, A-Pillar and Floor Flooding?

On sunroof-equipped Matrix and Vibe models the glass panel seal is deliberately not watertight - water that gets past it is supposed to run into four corner drains and out through tubes routed down the A- and C-pillars. Tree debris, pollen and dirt block those drains, or a tube p… Repairs typically run $0-$400. Severity: medium.

What is the 2003-2013 Toyota Matrix Catalyst Efficiency Failure (P0420) Driven by Oil Consumption and Aged O2 Sensors?

P0420 is among the most frequently reported check-engine complaints on the Matrix and its Pontiac Vibe twin. On these cars it is rarely a converter that simply wore out in isolation. Two upstream causes dominate: the aged downstream oxygen sensor whose switching becomes too lazy… Repairs typically run $150-$1,400. Severity: medium.

What is the 2003-2014 Toyota Matrix Rear Hatch Strut Failure?

The rear hatch lift support struts lose their gas charge, causing the hatch to fall or not stay open. This is a common issue on all Matrix model years, typically failing between 5-8 years of age. A falling hatch is a safety hazard. Repairs typically run $30-$80. Severity: low.

What is the 2003-2014 Toyota Matrix Rear Hatch Lift Strut Failure?

Matrix rear hatch gas struts lose pressure over time, causing the hatch to fail to stay open and drop unexpectedly. This is a common issue on both generations, typically occurring between 5-8 years of age. The failing struts create a safety hazard as the heavy hatch can strike th… Repairs typically run $30-$100. Severity: low.

What is the 2003-2008 Toyota Matrix Water Leak Through Taillight Seal Into Cargo Area?

The first-generation Matrix (2003-2008) is notorious for water leaking into the rear cargo area through deteriorated taillight gaskets. Water pools in the spare tire well and can damage the cargo floor, cause mold/mildew, and corrode the spare tire hardware. The taillight mountin… Repairs typically run $20-$100. Severity: low.

What is the 2003-2013 Toyota Matrix HVAC Blower Motor Resistor Failure - Fan Works Only on High?

The heater and air conditioning blower on the Matrix runs through a resistor pack that drops voltage for the lower fan speeds; the highest setting bypasses it entirely and feeds the motor directly. When the resistor burns open - the classic failure on this platform - the fan work… Repairs typically run $60-$400. Severity: low.

All 12 Known Issues

2005-2008 Toyota Matrix: Engine Control Module Solder/Varistor Cracking Causing Stalling and Harsh Shifting (Recall 10V384)#

2003-2013 Toyota Matrix: Takata Non-Desiccated Front Passenger Airbag Inflator Rupture#

2003-2006 Toyota Matrix: XRS 2ZZ-GE Oil Starvation from Unbaffled Oil Pan and VVTL-i Lift Dropout#

2003-2008 Toyota Matrix: Rocker Panel and Rear Wheel Arch Rust#

2003-2014 Toyota Matrix: Rear Hatch Strut Failure#

2003-2014 Toyota Matrix: Rear Hatch Lift Strut Failure#

2003-2008 Toyota Matrix: Water Leak Through Taillight Seal Into Cargo Area#

2003-2006 Toyota Matrix: AWD Viscous Coupling Bearing Whine Misdiagnosed as Rear Differential Failure#

2003-2013 Toyota Matrix: Water Pump Bearing Noise and Coolant Seepage on the 1.8L#

2003-2013 Toyota Matrix: Sunroof Drain Tube Clogging Causing Headliner, A-Pillar and Floor Flooding#

2003-2013 Toyota Matrix: Catalyst Efficiency Failure (P0420) Driven by Oil Consumption and Aged O2 Sensors#

2003-2013 Toyota Matrix: HVAC Blower Motor Resistor Failure - Fan Works Only on High#

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